Initially, the lights aligned in a row and appeared to hover in the sky. They were eventually joined by a second row of lights.

Video of Gold Lights over San Diego

The official explanation from CBS 8 is that the lights were part of a military exercise using flares from Squadron VMGR-325 based out of Marine Corps Air Station Miramar.

UPDATE: A Navy spokesperson says those lights seen in the sky tonight are flares. An aircraft squadron is performing "flare training" about 30 miles off the coast of San Diego. The lights might be seen intermittently through Thursday night, when the drills are expected to end. https://t.co/mcfl84S2Fe